Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u13191.018

ChromosomeExonStartStopDirection
chr2H1614338348614338317+
chr2H2614338728614338458+
chr2H3614338934614338838+
chr2H4614339597614339480+
chr2H5614348172614348118+
chr2H6614348432614348266+
chr2H7614349221614349034+
chr2H8614350161614350013+
chr2H9614350541614350292+
chr2H10614350712614350635+
chr2H11614351269614351011+
chr2H12614351485614351389+
chr2H13614354844614354764+
chr2H14614355033614354977+
chr2H15614355353614355222+
chr2H16614355517614355431+
chr2H17614355844614355736+
chr2H18614356065614355929+
chr2H19614356910614356806+
chr2H20614357771614357683+
chr2H21614357971614357869+
chr2H22614358168614358046+
chr2H23614358861614358722+
chr2H24614359344614359050+
chr2H25614359579614359440+


grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



Salmon TPM Values: sixteensamplesmorex

These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials


SampleTreatmentRep 1Rep 2Rep 3
morexEMB01.234330.0166168
morexETI0.9255230.8425430.369488
morexLEA1.152020.4860071.12783
morexEPI00.5016250.80618
morexROO01.184720
morexROO20.5256220.3692070.818947
morexNOD000.466665
morexRAC00.1389520.327157
morexINF10.000045779500
morexINF21.528920.8735080.950245
morexCAR51.254330.5159922.61244
morexCAR150.423960.4057742.06764
morexLEM0.2588830.3035160.340289
morexLOD0.45366500.206767
morexPAL00.3865330
morexSEN0.00008407541.13980



Homology to Model Species (BLASTX to E-value < 1e-30)

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os04g41510.1 +1 0.0 855 414/509 (81%) protein|serine/threonine-protein kinase GCN2, putative, expressed
TAIR PP10 AT3G59410 @ ARAPORT
AT3G59410.1 @ TAIR		 +1 0.0 977 508/909 (56%) Symbols: GCN2 | protein kinase family protein | chr3:21950575-21959151 FORWARD LENGTH=1241
BRACH PP3 Bradi5g14307.1.p +1 0.0 1649 798/893 (89%) pacid=32809296 transcript=Bradi5g14307.1 locus=Bradi5g14307 ID=Bradi5g14307.1.v3.1 annot-version=v3.1




Barley PseudoMolecules GBrowse

Click here to see more tracks within GBrowse -->



grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



CDS Sequence (3359 bp)

>BART1_0-u13191.018 3359 150831_barley_pseudomolecules
CTTCGCAAAATAAGAAAAGGGATTTAATTCTGGTACACTTGCTTCGGTTAGCCTGTGCGT
CAAAAGATTCTCTTTCAGCTGCTTTGCCAGTAATATCATTGGAGTTATGCAACATAGGGG
TGTGTCAATGTAGTATAGTAATTTATGTTTCCTTGTCGATTTCTCTTTATCACATTTCCT
AGTTAGATGATTTACATGTTATTTTCTGTTAACCAGGTTCTTTCTGAATGGGCTAAGCAA
TTAATTTCTGAATCTCCTGCTGTTTTTGGGGAAACTTTCGATCATGTTTTTGGGCAACAA
ATGATATCTTCGGAGTGCTCTCTATTTTGGAGGGCTGACAATTCATCGTCTAGGCCAAAC
TCCCGTTATTTGAATGATTTTGAAGAGCTCCGTTCACTTGGTCAGGGGGGCTTTGGCCGT
GTGGCATTGTGTAAAAACAAGCTCGATGGACGCCAATATGCTGTAAAGAAGATACGCCTC
AAGGATAGAAGTCCTCAAGTGAATGAAAAGATTCTCAGAGAAGTTGCCACACTTTCACGA
CTGCAGCATCAGCATGTTGTTCGTTACTACCAGGCATGGGTTGAAACTGAATATGGTCAA
CATCATGTTGTGAACAGCGGGGGGTCACGCACTGCTGAGAGCTCTATGTATAGTTTCGAC
GAGATCAGCTTATCAGATGCAGGTGCTGGAAATAAGCAGGAATGCACGTACTTGTACATC
CAAATGGAGTATTGTCCTAGAACCCTGCGACAGGACTTTGAGACATATAGTTCATCTTTC
AATGTCGACCATGCATGGCACTTATTTCGACAAATCGTGGAAGGCCTAGCACATGTTCAT
AGTCAAGGCATCATACACCGGGACTTGACACCTAGCAACATATTTTTTGATGTGCGCAAC
GATATCAAAATTGGAGATTTTGGTCTTGCCAAATTTCTAAAGCTGGAGCAGCTGGATCAT
GACCAATATATTCCTACTGAAGGAATGGGCGTTTCAATGGATGGAACAGGTCAAGTAGGT
ACCTATTTTTATACTGCACCGGAGGTAGAACAGAAGTGGCCACAGATAAACGAAAAGGTT
GACATGTACAGTGCGGGTGTTATATTCTTTGAGCTTTGGCATCCATTTTCAACAGCAATG
GAAAGACATCTTGTTCTCACTGATCTTAAACAGAAAGGCGAGTCTCCAATATCATGGTCA
ACACAATTTCCTGGTCAATCAAATCTATTAAGACGCTTGCTGTGTCCAAGCCCGTCCGAA
CGTCCATCTGCGATTGAGCTTTTGCAAAATGACTTGCCTCCTCGGATGGAGGACGAGTGG
TTAAATGTAACACGCACTGGAAGCACTGGACTGCGTGTCTTTTTGTATTAAGAAGAGCAC
CGAAGCGGCGCAAAATTTACAACTGATGTACTTAGAATGATACAGACACCAGAAGACACT
TACGTTTATGATCGAGTTATATCTACAATATTTAATGAAGATCGACTGGTCGCCAAAATG
CAATGTCAGCATGAAAGCAGTAAAAAATCCACTTATAAAAATGATAACAGTGAACTCTTG
GATTCCATTATTGAGGTTAGCAAAGAGGTTTTTAAGCGACATTGTGCTAAAAGGTTCCAG
ATAACACCCTTGCATACATTGGATGGGAAATTTACTGAAAATAGTGGAAAGACAGTGAAG
ATCCTAACGCAAGGAGGAGAGATGCTAGAACTTTGCTATGAGCTGCGAACACCATTTGTT
ATGAACGTTGCTGCTAACCAGTTATCATCATGTAAGCGTTATGAAATATCATGGGTTCAC
AGAAGAGCAGTTGGCCATTCAACTCCTTATCGTTTTCTTCAGGGTGATTTTGACATCATT
GGAGGTTCTTCACCAATAACACAGGCCGAAGTTATCAAGGTAGCTTTGGACCTTGTGAGA
CGTTTTTACAATTCGAAGGCAATAGTTATTCGACTGAATCATAGCAAACTCGCTGAAGCA
GTTTGTTCCTGGGCAGGAGTTCCTCAGGAACGAAGACAGAATGTTGCTGAGTTTCTATCT
TCTACTCTTGTTCAATATTGCCCAAACAAGGCGGATCGTAAGTCACAGTGGAGTTTCATT
CGAGGGCAACTATTACAGGATCTTCGTCTTTCTGAAGAAGTTGTTGAAAAGCTACATAAA
GCAGATCAGCGGTTTTGTGGATCTGCAGATCTAGTACTTGCTAGATTAAGAGGGACCTTT
TTCTATGATAAATCTGCTTGCAAGGCTCTTGATGATCTCTCCACATTCCTTAAATGTTTG
AGGGTATGGTCAGTTGAAGAACATATTGCTATTGATGTACTTATGCCTCCTTCAGACTAT
TACTACTCAGATATGTTTTTTCAGATCTACTCAAAAGAAGGCAGTCCTGCGTCGAGTTCC
CATGAAAAGTTGCTTGCTGTTGGCGGGCGATATGATATGTTGATGGAAAATGCTTGGGAT
AAGACACATAAAACCAAACCCCCGGGTGCTGTTGGTGTGAGCATTGCACTTGAGAAATTC
CTACCTAATAATCCTTCATCTGACGTTGGGTTGCCAAGGATTGAAAATAGCATCAGTGTA
CTAGTCTGTTCAAAGGGCGGCGGCGGACTCTTAAACGAACGCATGGAACTTGTTGCAGAA
CTTTGGGAAGCTAACATAAAGGCCCAGTTTGTTCCTCAGGAAGACCCAAGTCTTCAAGAA
CAATACGAGTACGCCAGTGATCATGACATCAAATGCCTTGTGTTTATCACTGAAGCAGGT
CTTGCGCAAACTGATCTTGTGAAGGTTAGACATCTCGATGCAAGAAAGGAGAAAGATGTT
GAAAAGGAAGAAATTGTGAAGTTCCTGTCTGAAGCAATATCTTTACAGTTCAAAAATCCT
ACAATCTGGAGCTGATTGGCAGTCTGCTCCTAAGTGAATTTCAGGTGAAAGCAGTGTTGC
CTTGCCAAACATTTTCACCTACACCAAATTGCAGGGTGACTGGTGGCTTTGTTCAATCTT
GGTTATCCTGGAGCATTGGCCAAGATTGATGGCTTGGTGTAATCCTGATTGTCCTGGAGC
AGTATTGCGGTGAATGCAAGCTGACGGGTAGCTGTTTTAAGGCAATCTTGGCTGCTATTA
TGTGGATAGCTAGTTGGTGCAGAGTTACTTCTGCGATGTGATCATGGAGCTGGAATGCTG
CACAACGTTCTTGTTGATAGTGGAACGGCTGTGCTACAGGCCAATTTTCCTTCTTTGATG
CTCGTAGGAAATGCCCAGTTTTGCAACTGGCTTAGCTTGGAGAAGACAAGCCAATGCAGT
TTTGCTACAATACCGGTCAAAGTAGAATGTATGTAATCTGTTATCTGTGCACAGTGCGA



Protein Sequence (492 aa)

>BART1_0-u13191.018 492 150831_barley_pseudomolecules
MIQTPEDTYVYDRVISTIFNEDRLVAKMQCQHESSKKSTYKNDNSELLDSIIEVSKEVFK
RHCAKRFQITPLHTLDGKFTENSGKTVKILTQGGEMLELCYELRTPFVMNVAANQLSSCK
RYEISWVHRRAVGHSTPYRFLQGDFDIIGGSSPITQAEVIKVALDLVRRFYNSKAIVIRL
NHSKLAEAVCSWAGVPQERRQNVAEFLSSTLVQYCPNKADRKSQWSFIRGQLLQDLRLSE
EVVEKLHKADQRFCGSADLVLARLRGTFFYDKSACKALDDLSTFLKCLRVWSVEEHIAID
VLMPPSDYYYSDMFFQIYSKEGSPASSSHEKLLAVGGRYDMLMENAWDKTHKTKPPGAVG
VSIALEKFLPNNPSSDVGLPRIENSISVLVCSKGGGGLLNERMELVAELWEANIKAQFVP
QEDPSLQEQYEYASDHDIKCLVFITEAGLAQTDLVKVRHLDARKEKDVEKEEIVKFLSEA
ISLQFKNPTIWS